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Rita Casadio
Person information
- affiliation: University of Bologna, Italy
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2020 – today
- 2023
- [j69]Giovanni Madeo, Castrense Savojardo
, Matteo Manfredi
, Pier Luigi Martelli
, Rita Casadio
:
CoCoNat: a novel method based on deep learning for coiled-coil prediction. Bioinform. 39(8) (2023) - 2022
- [j68]Matteo Manfredi
, Castrense Savojardo
, Pier Luigi Martelli
, Rita Casadio
:
E-SNPs&GO: embedding of protein sequence and function improves the annotation of human pathogenic variants. Bioinform. 38(23): 5168-5174 (2022) - 2021
- [j67]Castrense Savojardo
, Pier Luigi Martelli
, Rita Casadio
, Piero Fariselli:
On the critical review of five machine learning-based algorithms for predicting protein stability changes upon mutation. Briefings Bioinform. 22(1): 601-603 (2021) - [j66]Davide Baldazzi
, Castrense Savojardo
, Pier Luigi Martelli
, Rita Casadio
:
BENZ WS: the Bologna ENZyme Web Server for four-level EC number annotation. Nucleic Acids Res. 49(Webserver-Issue): 60-66 (2021) - 2020
- [j65]Castrense Savojardo
, Niccolò Bruciaferri
, Giacomo Tartari, Pier Luigi Martelli
, Rita Casadio
:
DeepMito: accurate prediction of protein sub-mitochondrial localization using convolutional neural networks. Bioinform. 36(1): 56-64 (2020) - [j64]Castrense Savojardo
, Pier Luigi Martelli
, Giacomo Tartari, Rita Casadio
:
Large-scale prediction and analysis of protein sub-mitochondrial localization with DeepMito. BMC Bioinform. 21-S(8): 266 (2020)
2010 – 2019
- 2019
- [j63]Ludovica Montanucci
, Castrense Savojardo
, Pier Luigi Martelli
, Rita Casadio
, Piero Fariselli
:
On the biases in predictions of protein stability changes upon variations: the INPS test case. Bioinform. 35(14): 2525-2527 (2019) - [r2]Pier Luigi Martelli, Giuseppe Profiti
, Rita Casadio:
Protein Functional Annotation. Encyclopedia of Bioinformatics and Computational Biology (2) 2019: 8-14 - [r1]Pier Luigi Martelli, Castrense Savojardo
, Giuseppe Profiti
, Rita Casadio:
Transmembrane Domain Prediction. Encyclopedia of Bioinformatics and Computational Biology (2) 2019: 46-52 - 2018
- [j62]Castrense Savojardo
, Pier Luigi Martelli
, Piero Fariselli, Rita Casadio
:
DeepSig: deep learning improves signal peptide detection in proteins. Bioinform. 34(10): 1690-1696 (2018) - [j61]Castrense Savojardo
, Pier Luigi Martelli
, Piero Fariselli, Giuseppe Profiti
, Rita Casadio
:
BUSCA: an integrative web server to predict subcellular localization of proteins. Nucleic Acids Res. 46(Webserver-Issue): W459-W466 (2018) - 2017
- [j60]Castrense Savojardo
, Pier Luigi Martelli
, Piero Fariselli, Rita Casadio
:
SChloro: directing Viridiplantae proteins to six chloroplastic sub-compartments. Bioinform. 33(3): 347-353 (2017) - [j59]Castrense Savojardo
, Piero Fariselli, Pier Luigi Martelli
, Rita Casadio
:
ISPRED4: interaction sites PREDiction in protein structures with a refining grammar model. Bioinform. 33(11): 1656-1663 (2017) - [j58]Giuseppe Profiti
, Pier Luigi Martelli
, Rita Casadio
:
The Bologna Annotation Resource (BAR 3.0): improving protein functional annotation. Nucleic Acids Res. 45(Webserver-Issue): W285-W290 (2017) - 2016
- [j57]Castrense Savojardo
, Piero Fariselli, Pier Luigi Martelli
, Rita Casadio
:
INPS-MD: a web server to predict stability of protein variants from sequence and structure. Bioinform. 32(16): 2542-2544 (2016) - [j56]Samuele Bovo
, Pietro Di Lena, Pier Luigi Martelli
, Piero Fariselli, Rita Casadio
:
NET-GE: a web-server for NETwork-based human gene enrichment. Bioinform. 32(22): 3489-3491 (2016) - [j55]Jon C. Ison
, Kristoffer Rapacki, Hervé Ménager
, Matús Kalas
, Emil Rydza, Piotr Chmura
, Christian Anthon
, Niall Beard
, Karel Berka
, Dan M. Bolser
, Tim Booth
, Anthony Bretaudeau, Jan Brezovsky
, Rita Casadio
, Gianni Cesareni, Frederik Coppens
, Michael Cornell, Gianmauro Cuccuru
, Kristian Davidsen, Gianluca Della Vedova
, Tunca Dogan
, Olivia Doppelt-Azeroual
, Laura Emery, Elisabeth Gasteiger
, Thomas Gatter, Tatyana Goldberg, Marie Grosjean
, Björn A. Grüning
, Manuela Helmer-Citterich
, Hans Ienasescu, Vassilios Ioannidis
, Martin Closter Jespersen, Rafael C. Jiménez
, Nick S. Juty, Peter Juvan, Maximilian Koch, Camille Laibe
, Jing-Woei Li, Luana Licata
, Fabien Mareuil
, Ivan Micetic
, Rune Møllegaard Friborg, Sébastien Moretti
, Chris Morris
, Steffen Möller, Aleksandra Nenadic, Hedi Peterson
, Giuseppe Profiti
, Peter M. Rice, Paolo Romano
, Paola Roncaglia, Rabie Saidi
, Andrea Schafferhans
, Veit Schwämmle
, Callum Smith, Maria Maddalena Sperotto, Heinz Stockinger
, Radka Svobodová Vareková
, Silvio C. E. Tosatto
, Victor de la Torre, Paolo Uva
, Allegra Via, Guy Yachdav, Federico Zambelli
, Gert Vriend, Burkhard Rost
, Helen E. Parkinson
, Peter Løngreen, Søren Brunak
:
Tools and data services registry: a community effort to document bioinformatics resources. Nucleic Acids Res. 44(Database-Issue): 38-47 (2016) - 2015
- [j54]Piero Fariselli, Pier Luigi Martelli
, Castrense Savojardo
, Rita Casadio
:
INPS: predicting the impact of non-synonymous variations on protein stability from sequence. Bioinform. 31(17): 2816-2821 (2015) - [j53]Castrense Savojardo
, Pier Luigi Martelli
, Piero Fariselli, Rita Casadio
:
TPpred3 detects and discriminates mitochondrial and chloroplastic targeting peptides in eukaryotic proteins. Bioinform. 31(20): 3269-3275 (2015) - [j52]Giuseppe Profiti
, Piero Fariselli, Rita Casadio
:
AlignBucket: a tool to speed up 'all-against-all' protein sequence alignments optimizing length constraints. Bioinform. 31(23): 3841-3843 (2015) - 2014
- [j51]Castrense Savojardo
, Pier Luigi Martelli
, Piero Fariselli
, Rita Casadio
:
TPpred2: improving the prediction of mitochondrial targeting peptide cleavage sites by exploiting sequence motifs. Bioinform. 30(20): 2973-2974 (2014) - 2013
- [j50]Damiano Piovesan
, Giuseppe Profiti
, Pier Luigi Martelli
, Piero Fariselli
, Luca Fontanesi
, Rita Casadio
:
SUS-BAR: a database of pig proteins with statistically validated structural and functional annotation. Database J. Biol. Databases Curation 2013 (2013) - [j49]Castrense Savojardo
, Piero Fariselli
, Rita Casadio
:
BETAWARE: a machine-learning tool to detect and predict transmembrane beta-barrel proteins in prokaryotes. Bioinform. 29(4): 504-505 (2013) - [j48]Valentina Indio
, Pier Luigi Martelli
, Castrense Savojardo
, Piero Fariselli
, Rita Casadio
:
The prediction of organelle-targeting peptides in eukaryotic proteins with Grammatical-Restrained Hidden Conditional Random Fields. Bioinform. 29(8): 981-988 (2013) - [j47]Castrense Savojardo
, Piero Fariselli, Pier Luigi Martelli
, Rita Casadio
:
BCov: a method for predicting β-sheet topology using sparse inverse covariance estimation and integer programming. Bioinform. 29(24): 3151-3157 (2013) - [j46]Pietro Di Lena
, Gang Wu, Pier Luigi Martelli
, Rita Casadio
, Christine Nardini
:
MIMO: an efficient tool for molecular interaction maps overlap. BMC Bioinform. 14: 159 (2013) - [j45]Castrense Savojardo
, Piero Fariselli
, Pier Luigi Martelli
, Rita Casadio
:
Prediction of disulfide connectivity in proteins with machine-learning methods and correlated mutations. BMC Bioinform. 14(S-1): S10 (2013) - [j44]Damiano Piovesan
, Pier Luigi Martelli
, Piero Fariselli
, Giuseppe Profiti
, Andrea Zauli, Ivan Rossi
, Rita Casadio
:
How to inherit statistically validated annotation within BAR+ protein clusters. BMC Bioinform. 14(S-3): S4 (2013) - [j43]Damiano Piovesan
, Giuseppe Profiti
, Pier Luigi Martelli, Piero Fariselli
, Rita Casadio
:
Extended and Robust Protein Sequence Annotation over Conservative Nonhierarchical Clusters: The Case Study of the ABC Transporters. ACM J. Emerg. Technol. Comput. Syst. 9(4): 27:1-27:8 (2013) - [c32]Giuseppe Profiti, Damiano Piovesan, Pier Luigi Martelli, Piero Fariselli, Rita Casadio:
Community Detection within Clusters Helps Large Scale Protein Annotation - Preliminary Results of Modularity Maximization for the BAR+ Database. BIOINFORMATICS 2013: 328-332 - [c31]Giuseppe Profiti, Damiano Piovesan, Pier Luigi Martelli, Piero Fariselli, Rita Casadio:
Protein Sequence Annotation by means of Community Detection. IWBBIO 2013: 753-755 - 2012
- [j42]Damiano Piovesan
, Giuseppe Profiti
, Pier Luigi Martelli
, Rita Casadio
:
The human "magnesome": detecting magnesium binding sites on human proteins. BMC Bioinform. 13(S-14): S10 (2012) - 2011
- [j41]Marco Vassura, Pietro di Lena
, Luciano Margara
, Maria Mirto, Giovanni Aloisio
, Piero Fariselli
, Rita Casadio:
Blurring contact maps of thousands of proteins: what we can learn by reconstructing 3D structure. BioData Min. 4: 1 (2011) - [j40]Andrea Pierleoni
, Pier Luigi Martelli
, Rita Casadio
:
MemLoci: predicting subcellular localization of membrane proteins in eukaryotes. Bioinform. 27(9): 1224-1230 (2011) - [j39]Castrense Savojardo
, Piero Fariselli
, Monther Alhamdoosh
, Pier Luigi Martelli
, Andrea Pierleoni
, Rita Casadio
:
Improving the prediction of disulfide bonds in Eukaryotes with machine learning methods and protein subcellular localization. Bioinform. 27(16): 2224-2230 (2011) - [j38]Castrense Savojardo
, Piero Fariselli
, Rita Casadio
:
Improving the detection of transmembrane β-barrel chains with N-to-1 extreme learning machines. Bioinform. 27(22): 3123-3128 (2011) - [j37]Pier Luigi Martelli
, Mattia D'Antonio, Paola Bonizzoni
, Tiziana Castrignanò, Anna Maria D'Erchia
, Paolo D'Onorio De Meo, Piero Fariselli
, Michele Finelli, Flavio Licciulli
, Marina Mangiulli, Flavio Mignone, Giulio Pavesi
, Ernesto Picardi
, Raffaella Rizzi
, Ivan Rossi
, Alessio Valletti
, Andrea Zauli, Federico Zambelli
, Rita Casadio
, Graziano Pesole
:
ASPicDB: a database of annotated transcript and protein variants generated by alternative splicing. Nucleic Acids Res. 39(Database-Issue): 80-85 (2011) - [j36]Damiano Piovesan
, Pier Luigi Martelli
, Piero Fariselli
, Andrea Zauli, Ivan Rossi
, Rita Casadio
:
BAR-PLUS: the Bologna Annotation Resource Plus for functional and structural annotation of protein sequences. Nucleic Acids Res. 39(Web-Server-Issue): 197-202 (2011) - [j35]Andrea Pierleoni
, Valentina Indio
, Castrense Savojardo
, Piero Fariselli
, Pier Luigi Martelli
, Rita Casadio
:
MemPype: a pipeline for the annotation of eukaryotic membrane proteins. Nucleic Acids Res. 39(Web-Server-Issue): 375-380 (2011) - [j34]Pietro di Lena
, Piero Fariselli
, Luciano Margara
, Marco Vassura, Rita Casadio
:
Is There an Optimal Substitution Matrix for Contact Prediction with Correlated Mutations? IEEE ACM Trans. Comput. Biol. Bioinform. 8(4): 1017-1028 (2011) - [c30]Monther Alhamdoosh, Castrense Savojardo, Piero Fariselli, Rita Casadio:
Disulfide Connectivity Prediction with Extreme Learning Machines. BIOINFORMATICS 2011: 5-14 - [c29]Castrense Savojardo
, Piero Fariselli
, Damiano Piovesan
, Pier Luigi Martelli
, Rita Casadio
:
Machine-Learning Methods to Predict Protein Interaction Sites in Folded Proteins. CIBB 2011: 127-135 - [p1]Pietro di Lena
, Piero Fariselli
, Luciano Margara
, Marco Vassura, Rita Casadio
:
Divide and Conquer Strategies for Protein Structure Prediction. Mathematical Approaches to Polymer Sequence Analysis and Related Problems 2011: 23-46 - 2010
- [j33]Pietro di Lena
, Piero Fariselli
, Luciano Margara
, Marco Vassura, Rita Casadio
:
Fast overlapping of protein contact maps by alignment of eigenvectors. Bioinform. 26(18): 2250-2258 (2010) - [c28]Castrense Savojardo
, Piero Fariselli
, Pier Luigi Martelli
, Priyank Shukla
, Rita Casadio
:
Prediction of the Bonding State of Cysteine Residues in Proteins with Machine-Learning Methods. CIBB 2010: 98-111
2000 – 2009
- 2009
- [j32]Pietro di Lena
, Marco Vassura, Luciano Margara
, Piero Fariselli
, Rita Casadio
:
On the Reconstruction of Three-dimensional Protein Structures from Contact Maps. Algorithms 2(1): 76-92 (2009) - [j31]Piero Fariselli
, Castrense Savojardo
, Pier Luigi Martelli
, Rita Casadio
:
Grammatical-Restrained Hidden Conditional Random Fields for Bioinformatics applications. Algorithms Mol. Biol. 4: 13 (2009) - [j30]Marco Vassura, Luciano Margara
, Piero Fariselli
, Rita Casadio
:
A graph theoretic approach to protein structure selection. Artif. Intell. Medicine 45(2-3): 229-237 (2009) - [j29]Iakes Ezkurdia, Lisa Bartoli, Piero Fariselli
, Rita Casadio
, Alfonso Valencia, Michael L. Tress
:
Progress and challenges in predicting protein-protein interaction sites. Briefings Bioinform. 10(3): 233-246 (2009) - [j28]Lisa Bartoli, Piero Fariselli
, Anders Krogh
, Rita Casadio
:
CCHMM_PROF: a HMM-based coiled-coil predictor with evolutionary information. Bioinform. 25(21): 2757-2763 (2009) - [c27]Piero Fariselli
, Lisa Bartoli, Rita Casadio
:
Improving Coiled-Coil Prediction with Evolutionary Information. CIBB 2009: 20-32 - [c26]Lisa Bartoli, Pier Luigi Martelli
, Ivan Rossi
, Piero Fariselli
, Rita Casadio
:
Prediction of Protein-Protein Interacting Sites: How to Bridge Molecular Events to Large Scale Protein Interaction Networks. CMSB 2009: 1-17 - [c25]Pietro di Lena
, Piero Fariselli
, Luciano Margara
, Marco Vassura, Rita Casadio
:
On the Upper Bound of the Prediction Accuracy of Residue Contacts in Proteins with Correlated Mutations: The Case Study of the Similarity Matrices. WABI 2009: 62-72 - 2008
- [j27]Marco Vassura, Luciano Margara
, Pietro di Lena
, Filippo Medri, Piero Fariselli
, Rita Casadio:
FT-COMAR: fault tolerant three-dimensional structure reconstruction from protein contact maps. Bioinform. 24(10): 1313-1315 (2008) - [j26]Emidio Capriotti
, Piero Fariselli
, Ivan Rossi
, Rita Casadio
:
A three-state prediction of single point mutations on protein stability changes. BMC Bioinform. 9(S-2) (2008) - [j25]Andrea Pierleoni
, Pier Luigi Martelli
, Rita Casadio
:
PredGPI: a GPI-anchor predictor. BMC Bioinform. 9 (2008) - [j24]Marco Vassura, Luciano Margara
, Pietro di Lena
, Filippo Medri, Piero Fariselli
, Rita Casadio
:
Reconstruction of 3D Structures From Protein Contact Maps. IEEE ACM Trans. Comput. Biol. Bioinform. 5(3): 357-367 (2008) - [c24]Pietro di Lena
, Luciano Margara
, Marco Vassura, Piero Fariselli
, Rita Casadio
:
A New Protein Representation Based on Fragment Contacts: Towards an Improvement of Contact Maps Predictions. CIBB 2008: 210-221 - [c23]Maria Mirto, Alessandra Ferramosca, Daniele Tartarini, Simone Romano, Alessandro Negro, Gianluca Tasco, Sandro Fiore, Vincenzo Zara, Rita Casadio, Giovanni Aloisio:
A Protein Structure Prediction Service in the ProGenGrid System. HealthGrid 2008: 135-146 - [c22]Ludovica Montanucci
, Piero Fariselli
, Pier Luigi Martelli
, Rita Casadio:
Predicting protein thermostability changes from sequence upon multiple mutations. ISMB 2008: 190-195 - [e2]Rita Casadio, Ovidiu Daescu, Cosmin Dini, Daniela Stan Raicu:
International Conference on Biocomputation, Bioinformatics, and Biomedical Technologies, BIOTECHNO 2008, June 29 - July 5, 2008, Bucharest, Romania. IEEE Computer Society 2008, ISBN 978-0-7695-3191-5 [contents] - 2007
- [j23]Piero Fariselli
, Ivan Rossi
, Emidio Capriotti
, Rita Casadio:
The WWWH of remote homolog detection: The state of the art. Briefings Bioinform. 8(2): 78-87 (2007) - [j22]Emidio Capriotti
, Rita Casadio:
K-Fold: a tool for the prediction of the protein folding kinetic order and rate. Bioinform. 23(3): 385-386 (2007) - [j21]Lisa Bartoli, Remo Calabrese, Piero Fariselli
, Damiano G. Mita
, Rita Casadio:
A computational approach for detecting peptidases and their specific inhibitors at the genome level. BMC Bioinform. 8(S-1) (2007) - [j20]Rita Casadio, Manuela Helmer-Citterich, Graziano Pesole
:
Bioinformatics in Italy: BITS2006, the third annual meeting of the Italian Society of Bioinformatics. BMC Bioinform. 8(S-1) (2007) - [j19]Andrea Pierleoni
, Pier Luigi Martelli
, Piero Fariselli
, Rita Casadio:
eSLDB: eukaryotic subcellular localization database. Nucleic Acids Res. 35(Database-Issue): 208-212 (2007) - [j18]Rita Casadio:
Guest Editor's Introduction to the Special Section on Computational Biology and Bioinformatics (WABI) - Part 2. IEEE ACM Trans. Comput. Biol. Bioinform. 4(1): 3 (2007) - [c21]Piero Fariselli, Daniele Molinini, Rita Casadio, Anders Krogh
:
Prediction of Structurally-Determined Coiled-Coil Domains with Hidden Markov Models. BIRD 2007: 292-302 - [c20]Marco Vassura, Luciano Margara
, Filippo Medri, Pietro di Lena, Piero Fariselli, Rita Casadio:
Reconstruction of 3D Structures from Protein Contact Maps. ISBRA 2007: 578-589 - [c19]Maria Mirto, Ivan Rossi
, Italo Epicoco, Sandro Fiore, Piero Fariselli, Rita Casadio, Giovanni Aloisio:
High Throughput Protein Similarity Searches in the LIBI Grid Problem Solving Environment. ISPA Workshops 2007: 414-423 - [c18]Luciana Carota, Lisa Bartoli, Piero Fariselli
, Pier Luigi Martelli
, Ludovica Montanucci
, Giorgio Pietro Maggi, Rita Casadio
:
High Throughput Comparison of Prokaryotic Genomes. PPAM 2007: 1200-1209 - [c17]Marco Vassura, Luciano Margara
, Pietro di Lena, Filippo Medri, Piero Fariselli, Rita Casadio:
Fault Tolerance for Large Scale Protein 3D Reconstruction from Contact Maps. WABI 2007: 25-37 - [c16]Marco Vassura, Luciano Margara
, Piero Fariselli, Rita Casadio:
A Graph Theoretic Approach to Protein Structure Selection. WILF 2007: 497-504 - 2006
- [j17]Emidio Capriotti
, Remo Calabrese, Rita Casadio:
Predicting the insurgence of human genetic diseases associated to single point protein mutations with support vector machines and evolutionary information. Bioinform. 22(22): 2729-2734 (2006) - [j16]Mauro Amico, Michele Finelli, Ivan Rossi
, Andrea Zauli, Arne Elofsson
, Håkan Viklund, Gunnar von Heijne
, David Jones, Anders Krogh
, Piero Fariselli
, Pier Luigi Martelli
, Rita Casadio:
PONGO: a web server for multiple predictions of all-alpha transmembrane proteins. Nucleic Acids Res. 34(Web-Server-Issue): 169-172 (2006) - [j15]Rita Casadio:
Guest Editor's Introduction to the Special Issue on Computational Biology and Bioinformatics - Part 1. IEEE ACM Trans. Comput. Biol. Bioinform. 3(4): 321-322 (2006) - [c15]Andrea Pierleoni
, Pier Luigi Martelli
, Piero Fariselli
, Rita Casadio:
BaCelLo: a balanced subcellular localization predictor. ISMB (Supplement of Bioinformatics) 2006: 415-416 - 2005
- [j14]Piero Fariselli
, Pier Luigi Martelli
, Rita Casadio:
A new decoding algorithm for hidden Markov models improves the prediction of the topology of all-beta membrane proteins. BMC Bioinform. 6(S-4) (2005) - [j13]Manuela Helmer-Citterich, Rita Casadio, Alessandro Guffanti, Giancarlo Mauri
, Luciano Milanesi
, Graziano Pesole
, Giorgio Valle
, Cecilia Saccone:
Overview of BITS2005, the Second Annual Meeting of the Italian Bioinformatics Society. BMC Bioinform. 6(S-4) (2005) - [j12]Luciano Milanesi, Mauro Petrillo
, Leandra Sepe, Angelo Boccia, Nunzio D'Agostino
, Myriam Passamano, Salvatore Di Nardo, Gianluca Tasco, Rita Casadio, Giovanni Paolella:
Systematic analysis of human kinase genes: a large number of genes and alternative splicing events result in functional and structural diversity. BMC Bioinform. 6(S-4) (2005) - [j11]Piero Fariselli
, Michele Finelli, Ivan Rossi
, Mauro Amico, Andrea Zauli, Pier Luigi Martelli
, Rita Casadio:
TRAMPLE: the transmembrane protein labelling environment. Nucleic Acids Res. 33(Web-Server-Issue): 198-201 (2005) - [j10]Emidio Capriotti
, Piero Fariselli
, Rita Casadio:
I-Mutant2.0: predicting stability changes upon mutation from the protein sequence or structure. Nucleic Acids Res. 33(Web-Server-Issue): 306-310 (2005) - [c14]Emidio Capriotti
, Piero Fariselli
, Remo Calabrese, Rita Casadio:
Predicting protein stability changes from sequences using support vector machines. ECCB/JBI 2005: 58 - [e1]Rita Casadio, Gene Myers:
Algorithms in Bioinformatics, 5th International Workshop, WABI 2005, Mallorca, Spain, October 3-6, 2005, Proceedings. Lecture Notes in Computer Science 3692, Springer 2005, ISBN 3-540-29008-7 [contents] - 2004
- [j9]Carine Berezin, Fabian Glaser, Josef Rosenberg, Inbal Paz, Tal Pupko
, Piero Fariselli
, Rita Casadio, Nir Ben-Tal
:
ConSeq: the identification of functionally and structurally important residues in protein sequences. Bioinform. 20(8): 1322-1324 (2004) - [c13]Emidio Capriotti
, Piero Fariselli
, Rita Casadio:
A neural-network-based method for predicting protein stability changes upon single point mutations. ISMB/ECCB (Supplement of Bioinformatics) 2004: 63-68 - 2003
- [j8]Rita Casadio, Piero Fariselli, Pier Luigi Martelli:
In silico prediction of the structure of membrane proteins: Is it feasible? Briefings Bioinform. 4(4): 341-348 (2003) - [j7]Piero Fariselli
, Michele Finelli, Davide Marchignoli, Pier Luigi Martelli
, Ivan Rossi
, Rita Casadio:
MaxSubSeq: an algorithm for segment-length optimization. The case study of the transmembrane spanning segments. Bioinform. 19(4): 500-505 (2003) - [j6]Piero Fariselli
, Giacomo Finocchiaro, Rita Casadio:
SPEPlip: the detection of signal peptide and lipoprotein cleavage sites. Bioinform. 19(18): 2498-2499 (2003) - [c12]Pier Luigi Martelli, Piero Fariselli, Rita Casadio:
An ENSEMBLE machine learning approach for the prediction of all-alpha membrane proteins. ISMB (Supplement of Bioinformatics) 2003: 205-211 - [c11]Piero Fariselli, Andrea Zauli, Ivan Rossi
, Michele Finelli, Pier Luigi Martelli
, Rita Casadio:
A neural network method to improve prediction of protein-protein interaction sites in heterocomplexes. NNSP 2003: 33-41 - [c10]Piero Fariselli, Giacomo Finocchiaro, Rita Casadio:
Prediction of Signal Peptide in Proteins with Neural Networks. WIRN 2003: 237-244 - 2002
- [c9]Pier Luigi Martelli, Piero Fariselli, Anders Krogh, Rita Casadio:
A sequence-profile-based HMM for predicting and discriminating beta barrel membrane proteins. ISMB 2002: 46-53 - 2001
- [j5]Piero Fariselli, Rita Casadio:
RCNPRED: prediction of the residue co-ordination numbers in proteins. Bioinform. 17(1): 202-204 (2001) - [j4]Piero Fariselli, Rita Casadio:
Prediction of disulfide connectivity in proteins. Bioinform. 17(10): 957-964 (2001) - [c8]Gianluca Pollastri, Pierre Baldi, Piero Fariselli, Rita Casadio:
Improved prediction of the number of residue contacts in proteins by recurrent neural networks. ISMB (Supplement of Bioinformatics) 2001: 234-242 - 2000
- [c7]Piero Fariselli, Rita Casadio:
Prediction of the Number of Residue Contacts in Proteins. ISMB 2000: 146-151
1990 – 1999
- 1999
- [c6]Rita Casadio, Mario Compiani, Piero Fariselli, Pier Luigi Martelli:
A Data Base of Minimally Frustrated Alpha-Helical Segments Extracted from Proteins According to an Entropy Criterion. ISMB 1999: 68-76 - 1997
- [j3]Francesco Vivarelli, Piero Fariselli, Rita Casadio:
The Prediction of Protein Secondary Structure with a Cascade Correlation Learning Architecture of Neural Networks. Neural Comput. Appl. 6(1): 57-62 (1997) - [c5]Piero Fariselli, Rita Casadio:
Pseudodihedral Potential of Protein Residues and the Prediction of Folding. BCEC 1997: 112-121 - [c4]P. Arrigo, Piero Fariselli, Rita Casadio:
Self-Organizing Neural Maps of the Coding Sequences of G-protein-coupled Receptors Reveal Local Domains Associated with Potentially Functional Determinants in the Proteins. ISMB 1997: 44-47 - 1996
- [j2]Piero Fariselli, Rita Casadio:
HTP: a neural network-based method for predicting the topology of helical transmembrane domains in proteins. Comput. Appl. Biosci. 12(1): 41-48 (1996) - [c3]P. Arrigo, Piero Fariselli, Rita Casadio:
The Identification of Locally Ordered Features an Completely unaligned Genomic Sequences by using an Unsupervised Neural Classifier. German Conference on Bioinformatics 1996: 156-158 - [c2]Burkhard Rost, Rita Casadio, Piero Fariselli:
Refining Neural Network Predictions for Helical Transmembrane Proteins by Dynamic Programming. ISMB 1996: 192-200 - 1995
- [j1]Francesco Vivarelli, G. Giusti, Marco Villani
, Renato Campanini, Piero Fariselli
, Mario Compiani, Rita Casadio:
LGANN: a parallel system combining a local genetic algorithm and neural networks for the prediction of secondary structure of proteins. Comput. Appl. Biosci. 11(3): 253-260 (1995) - [c1]Rita Casadio, Mario Compiani, Piero Fariselli, Francesco Vivarelli:
Predicting Free Energy Contribution to the Conformational Stability of Folded Proteins From the Residue Sequence with Radial Basis Function Networks. ISMB 1995: 81-88
Coauthor Index
aka: Pietro di Lena
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